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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtcttggaacagttaaaatttaccaagtagactgaacctgtatgatgctaatctgctgacttatgtattttggctgtagGTCCAACAATATGGTTTCTAGCTATTATCTATTTCATATCAGGGGTTCCTGGAGCGTATGTTATGTGGTATCGCCCTCTTTATCGTGCCATGAG

Basic information

species Arabidopsis thaliana
transcript AT2G20840.1
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT2G20840.1 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: GLYMA06G45160.1 (Glycine max), 3'ss of exon 7
gtaagtcttggaacagttaaaatttaccaagtagactgaacctgtatgatgct-aatctgctgacttatgtattttggctgtagGTCCAACAATATGGTTTCTAGCTATTATCTATTTCATATCAGGGGTTCCTGGAGCGTATGTTATGTGGTATCGCCCTCTTTATCGTGCCATGAG
||  |||||| ||| |   | ||| |   |  |   |     |   | ||||| ||| | | ||||| |    |||   |||||||||||| || |||||||| |||||||||||||| || || || | ||| ||| | |||||  ||||||||||||||||||||||||| |||||
gtttgtcttgcaactg--gatattgatgcatcaattttg--ttaagtcatgcttaatttaccgacttgt---ctttccatgtagGTCCAACCATCTGGTTTCTTGCTATTATCTATTTTATTTCTGGTGCTCCAGGATCCTATGTGTTGTGGTATCGCCCTCTTTATCGTGCTATGAG

upper sequence: AT2G20840.1 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: GLYMA12G11820.2 (Glycine max), 3'ss of exon 7
gtaagtcttggaacagttaaaatttaccaagtagactgaacctgtatgatgctaatctgctgacttatgtattttggctgtagGTCCAACAATATGGTTTCTAGCTATTATCTATTTCATATCAGGGGTTCCTGGAGCGTATGTTATGTGGTATCGCCCTCTTTATCGTGCCATGAG
||  |||||| ||| |  | | |  | |||      | |  |   ||| |  ||||   | ||||| | | |      |||||||||||| || |||||||| || ||||||||||| || || || | ||| ||| | |||||  ||||||||||||||||||||||||| |||||
gtttgtcttgcaactgg-atattgcatcaatcttgttaagtc---atgct--taattaacagacttgtctctcca---tgtaggtccaaccatctggtttcttgcaattatctattttatttctggtgctccagGATCCTATGTGTTGTGGTATCGCCCTCTTTATCGTGCTATGAG

upper sequence: AT2G20840.1 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: GLYMA12G32860.1 (Glycine max), 3'ss of exon 5
gtaagtcttggaacagttaaaatttaccaagtagactg--aacctgtatgatgctaatctgctgacttatgtattttggct-gtagGTCCAACAATATGGTTTCTAGCTATTATCTATTTCATATCAGGGGTTCCTGGAGCGTATGTTATGTGGTATCGCCCTCTTTATCGTGCCATGAG
               |||    |||||  | |  ||    || |    |   |||| | |    ||  ||   | ||  || |||||||   |||| ||||| ||| |||| || || || || || || ||||| | | | ||||| |||||||||||||||||||||||||| |  ||
---------------gtttgt-tttacttattgaaccattaaacatagtagggctattgtttacacaaattcgtcttaccttgtagGTCTTTCAATCTGGTTCCTATCTATCATATACTTTATTTCCGGTGTTCCAGCATCCTATGTGATGTGGTATCGCCCTCTTTATCGTGCGACAAG

upper sequence: AT2G20840.1 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: Vv12s0059g01930.t01 (Vitis vinifera), 3'ss of exon 6
gtaagtcttggaacagttaaaatttaccaag--tagactgaacctgtatgatgc--taatctgctgacttatgtattttggctgtagGTCCAACAATATGGTTTCTAGCTATTATCTATTTCATATCAGGGGTTCCTGGAGCGTATGTTATGTGGTATCGCCCTCTTTATCGTGCCATGAG
|| ||| |||||||  |    |  | ||||   | |    |   ||||   | |  ||||  | |     || |  |||   ||||||||| ||||| |||||||| || || ||||| ||| ||||||||||||| ||||| |||||  |||||||||| ||||||||||||||||||||
gttagt-ttggaactttgttcacctcccaaaccttggggaatattgtaaccttccataattgggtcttgaatttgctttccttgtagGTCCGACAATTTGGTTTCTTGCCATCATCTACTTCTTATCAGGGGTTCCAGGAGCTTATGTGTTGTGGTATCGTCCTCTTTATCGTGCCATGAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aagtagactgaacctgtatgatgctaatctgctgacttatgtattttggctgtagGTCCAACAATATGGTTTCTAGCTATTATCTATTTCATATCAGGGGTTCCTGGAGCGTATGTTATGTGGTATCGCCCTCTTTATCGTGCCATGAG
                             tgctgac  putative branch site (score: 2)
                                    ttatgtatttt  TA-rich tract